HEADER LYASE 27-SEP-13 4C82 TITLE ISPF (PLASMODIUM FALCIPARUM) UNLIGANDED STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: 2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MATURE PROTEIN (APICOPLAST-TARGETING SEQUENCE OMITTED), COMPND 5 RESIDUES 60-240; COMPND 6 SYNONYM: MECDP-SYNTHASE, MECPS, 2C-METHYL-D-ERYTHRITOL-2,4- COMPND 7 CYCLODIPHOSPHATE SYNTHASE; COMPND 8 EC: 4.6.1.12; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: 3D7; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: GOLD; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15BTEV KEYWDS LYASE EXPDTA X-RAY DIFFRACTION AUTHOR P.E.F.O'ROURKE,J.KALINOWSKA-TLUSCIK,P.K.FYFE,A.DAWSON,W.N.HUNTER REVDAT 5 20-DEC-23 4C82 1 REMARK LINK REVDAT 4 29-MAY-19 4C82 1 REMARK REVDAT 3 08-MAY-19 4C82 1 REMARK REVDAT 2 12-MAR-14 4C82 1 JRNL REVDAT 1 08-JAN-14 4C82 0 JRNL AUTH P.E.O ROURKE,J.KALINOWSKA-TLUSCIK,P.K.FYFE,A.DAWSON, JRNL AUTH 2 W.N.HUNTER JRNL TITL CRYSTAL STRUCTURES OF ISPF FROM PLASMODIUM FALCIPARUM AND JRNL TITL 2 BURKHOLDERIA CENOCEPACIA: COMPARISONS INFORM ANTIMICROBIAL JRNL TITL 3 DRUG TARGET ASSESSMENT. JRNL REF BMC STRUCT.BIOL. V. 14 1 2014 JRNL REFN ESSN 1472-6807 JRNL PMID 24410837 JRNL DOI 10.1186/1472-6807-14-1 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 17023 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1044 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1246 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.22 REMARK 3 BIN R VALUE (WORKING SET) : 0.2920 REMARK 3 BIN FREE R VALUE SET COUNT : 59 REMARK 3 BIN FREE R VALUE : 0.3730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1213 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 94 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.26000 REMARK 3 B22 (A**2) : -0.26000 REMARK 3 B33 (A**2) : 0.39000 REMARK 3 B12 (A**2) : -0.13000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.133 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.129 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.096 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.406 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1230 ; 0.019 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1656 ; 2.087 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 153 ; 6.662 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 48 ;45.073 ;25.625 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 241 ;19.187 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;10.280 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 202 ; 0.152 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 861 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. RESIDUES 82-97 AND 144-151 ARE DISORDERED. HYDROGENS REMARK 3 HAVE BEEN USED IF PRESENT IN THE INPUT U VALUES REFINED REMARK 3 INDIVIDUALLY REMARK 4 REMARK 4 4C82 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1290058512. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV PLUS PLUS REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18068 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 29.710 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 2.300 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.48000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 4C81 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTEIN WAS CRYSTALLISED BY HANGING REMARK 280 -DROP VAPOUR DIFFUSION. PFISPF SAMPLE IN 100 MM KCL, 100 MM L- REMARK 280 ARGININE, 2 MM MGCL2, 50 MM CHES, PH 9.5; WAS CONCENTRATED TO 6 REMARK 280 MG/ML, AND HAD FOSMIDOMYCIN ADDED (20 MM FINAL CONCENTRATION). REMARK 280 CRYSTALS WERE OBTAINED BY MIXING 2 MICROLITES OF PROTEIN WITH 2 REMARK 280 MICROLITRES OF RESERVOIR SOLUTION AT 20 DEGREES C. RESERVOIR REMARK 280 SOLUTION: 1.8-2.5 M (NH4)2SO4, 5MM ZNCL2, 100 MM BIS-TRIS, PH REMARK 280 5.5. SATURATED SUCROSE WAS USED AS A CRYO-PROTECTANT DURING REMARK 280 COLLECTION., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.11150 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 24.31309 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 34.15033 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 42.11150 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 24.31309 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 34.15033 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 42.11150 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 24.31309 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 34.15033 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 48.62617 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 68.30067 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 48.62617 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 68.30067 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 48.62617 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 68.30067 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19280 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -264.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 42.11150 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 -72.93926 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 84.22300 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 S SO4 A1242 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 57 REMARK 465 HIS A 58 REMARK 465 MET A 59 REMARK 465 TYR A 82 REMARK 465 ASN A 83 REMARK 465 THR A 84 REMARK 465 TYR A 85 REMARK 465 ALA A 86 REMARK 465 ASN A 87 REMARK 465 ASN A 88 REMARK 465 ASP A 89 REMARK 465 PHE A 90 REMARK 465 ASN A 91 REMARK 465 LYS A 92 REMARK 465 ASN A 93 REMARK 465 GLU A 94 REMARK 465 GLN A 95 REMARK 465 SER A 96 REMARK 465 PHE A 97 REMARK 465 ASP A 144 REMARK 465 LYS A 145 REMARK 465 ASP A 146 REMARK 465 GLU A 147 REMARK 465 LYS A 148 REMARK 465 ASN A 149 REMARK 465 LYS A 150 REMARK 465 ASN A 151 REMARK 465 SER A 240 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 2062 O HOH A 2063 1.35 REMARK 500 O HOH A 2014 O HOH A 2016 1.58 REMARK 500 O VAL A 175 O HOH A 2063 2.12 REMARK 500 O HOH A 2032 O HOH A 2036 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OE1 GLU A 216 O HOH A 2010 2545 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 123 CG HIS A 123 CD2 0.080 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 79 -151.50 -101.21 REMARK 500 GLU A 80 78.76 -102.91 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1240 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 71 OD2 REMARK 620 2 HIS A 73 NE2 102.7 REMARK 620 3 HIS A 123 ND1 96.1 115.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1241 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 215 NE2 REMARK 620 2 GLU A 228 OE1 108.9 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1240 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1241 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1242 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4C81 RELATED DB: PDB REMARK 900 ISPF (PLASMODIUM FALCIPARUM) CDP COMPLEX REMARK 900 RELATED ID: 4C8E RELATED DB: PDB REMARK 900 ISPF (BURKHOLDERIA CENOCEPACIA) 2CMP COMPLEX REMARK 900 RELATED ID: 4C8G RELATED DB: PDB REMARK 900 ISPF (BURKHOLDERIA CENOCEPACIA) CMP COMPLEX REMARK 900 RELATED ID: 4C8I RELATED DB: PDB REMARK 900 ISPF (BURKHOLDERIA CENOCEPACIA) CITRATE COMPLEX REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 1-59, A PREDICTED APICOPLAST TARGETING SEQUENCE, REMARK 999 HAVE BEEN OMITTED FROM THE CONSTRUCT USED TO PREPARE REMARK 999 PROTEIN FOR CRYSTALLISATION. DBREF 4C82 A 60 240 UNP P62368 ISPF_PLAF7 60 240 SEQADV 4C82 GLY A 57 UNP P62368 EXPRESSION TAG SEQADV 4C82 HIS A 58 UNP P62368 EXPRESSION TAG SEQADV 4C82 MET A 59 UNP P62368 EXPRESSION TAG SEQADV 4C82 SER A 60 UNP P62368 CYS 60 ENGINEERED MUTATION SEQRES 1 A 184 GLY HIS MET SER TYR ASN GLY ILE ARG ILE GLY GLN GLY SEQRES 2 A 184 TYR ASP ILE HIS LYS ILE LYS VAL LEU ASP GLU GLU TYR SEQRES 3 A 184 ASN THR TYR ALA ASN ASN ASP PHE ASN LYS ASN GLU GLN SEQRES 4 A 184 SER PHE LYS THR LEU THR LEU GLY GLY VAL LYS ILE ASN SEQRES 5 A 184 ASN VAL LEU VAL LEU SER HIS SER ASP GLY ASP ILE ILE SEQRES 6 A 184 TYR HIS SER ILE VAL ASP SER ILE LEU GLY ALA LEU GLY SEQRES 7 A 184 SER LEU ASP ILE GLY THR LEU PHE PRO ASP LYS ASP GLU SEQRES 8 A 184 LYS ASN LYS ASN LYS ASN SER ALA ILE PHE LEU ARG TYR SEQRES 9 A 184 ALA ARG LEU LEU ILE TYR LYS LYS ASN TYR ASP ILE GLY SEQRES 10 A 184 ASN VAL ASP ILE ASN VAL ILE ALA GLN VAL PRO LYS ILE SEQRES 11 A 184 SER ASN ILE ARG LYS ASN ILE ILE LYS ASN ILE SER THR SEQRES 12 A 184 VAL LEU ASN ILE ASP GLU SER GLN ILE SER VAL LYS GLY SEQRES 13 A 184 LYS THR HIS GLU LYS LEU GLY VAL ILE GLY GLU LYS LYS SEQRES 14 A 184 ALA ILE GLU CYS PHE ALA ASN ILE LEU LEU ILE PRO LYS SEQRES 15 A 184 ASN SER HET ZN A1240 1 HET ZN A1241 1 HET SO4 A1242 5 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 2 ZN 2(ZN 2+) FORMUL 4 SO4 O4 S 2- FORMUL 5 HOH *94(H2 O) HELIX 1 1 ASP A 119 GLY A 134 1 16 HELIX 2 2 ASP A 137 PHE A 142 1 6 HELIX 3 3 LYS A 152 LYS A 168 1 17 HELIX 4 4 ILE A 189 ASN A 202 1 14 HELIX 5 5 ASP A 204 SER A 206 5 3 HELIX 6 6 LEU A 218 GLU A 223 1 6 SHEET 1 AA 6 THR A 99 LEU A 102 0 SHEET 2 AA 6 VAL A 105 VAL A 112 -1 O VAL A 105 N LEU A 102 SHEET 3 AA 6 ARG A 65 VAL A 77 -1 O LYS A 76 N LEU A 111 SHEET 4 AA 6 ALA A 226 PRO A 237 -1 O ILE A 227 N HIS A 73 SHEET 5 AA 6 TYR A 170 ILE A 180 -1 O ASP A 171 N ILE A 236 SHEET 6 AA 6 ILE A 208 LYS A 213 1 O SER A 209 N ILE A 177 LINK OD2 ASP A 71 ZN ZN A1240 1555 1555 2.01 LINK NE2 HIS A 73 ZN ZN A1240 1555 1555 2.06 LINK ND1 HIS A 123 ZN ZN A1240 1555 1555 2.00 LINK NE2 HIS A 215 ZN ZN A1241 1555 1555 2.63 LINK OE1 GLU A 228 ZN ZN A1241 2545 1555 2.61 CISPEP 1 VAL A 183 PRO A 184 0 -0.05 SITE 1 AC1 3 ASP A 71 HIS A 73 HIS A 123 SITE 1 AC2 4 TYR A 70 HIS A 215 GLU A 228 HOH A2088 SITE 1 AC3 2 GLY A 219 VAL A 220 CRYST1 84.223 84.223 102.451 90.00 90.00 120.00 H 3 9 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011873 0.006855 0.000000 0.00000 SCALE2 0.000000 0.013710 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009761 0.00000